SAMtools 1.9-foss-2018b

Deprecated: Use of this version of SAMtools is deprecated. More information on our Applications Support and Retention Policy.

There is a newer install of SAMtools

SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format.

Accessing SAMtools 1.9-foss-2018b

To load the module for SAMtools 1.9-foss-2018b please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load SAMtools/1.9-foss-2018b

BEAR Apps Version

2018b

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

More Information

For more information visit the SAMtools website.

Dependencies

This version of SAMtools has a direct dependency on: bzip2/1.0.6-GCCcore-7.3.0 foss/2018b ncurses/6.1-GCCcore-7.3.0 XZ/5.2.4-GCCcore-7.3.0 zlib/1.2.11-GCCcore-7.3.0

Required By

This version of SAMtools is a direct dependent of: AUGUSTUS/3.3.2-foss-2018b-Python-2.7.15 bam-readcount/0.8.0-foss-2018b HAPDeNovo/fe8bcc2-foss-2018b-Python-3.6.6 OptiType/1.3.2-foss-2018b-Python-2.7.15 OptiType/1.3.2-foss-2018b-Python-3.6.6 TRAPeS/e65bb7b-foss-2018b-Python-2.7.15

Other Versions

These versions of SAMtools are available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Version	BEAR Apps Version
1.17-GCC-12.2.0	2022b
1.16.1-GCC-11.3.0	2022a
1.15.1-GCC-11.2.0	2021b
1.12-GCC-10.3.0	2021a
1.11-GCC-10.2.0	2020b
1.10-GCC-9.3.0	2020a
1.10-GCC-8.3.0	2019b
0.1.20-GCC-11.3.0	2022a
0.1.19-GCC-10.3.0	2021a
1.9-GCC-8.2.0-2.31.1	2019a
0.1.20-foss-2018b	2018b
0.1.18-foss-2018b	2018b

Last modified on 3rd June 2019